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Showing :
reproducibility
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3
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1.1k
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DESeq2: Question regarding changes between Bioconductor 3.2 and 3.4 or recent version changes
deseq2
new version
bioconductor
software error
reproducibility
7.5 years ago
Daniel Elsner
• 0
3
votes
2
replies
782
views
Does a specific bioconductor version constrain versions of non-bioconductor packages?
reproducibility
versions
installing
base-r
updated 4.1 years ago by
Mike Smith
★ 6.5k • written 4.1 years ago by
Yannick Wurm
▴ 40
2
votes
4
replies
1.8k
views
no date tag included in docker ps output
docker
reproducibility
8.6 years ago
anton.kratz
▴ 60
1
vote
2
replies
1.4k
views
Package archive for the purpose of reproducible research
archive
reproducibility
updated 8.4 years ago by
Martin Morgan
25k • written 8.4 years ago by
robert.bruccoleri
▴ 10
0
votes
16
replies
2.5k
views
Variance between runs of Rsubread
rsubread
alignment
reproducibility
7.6 years ago
Isaac Virshup
• 0
0
votes
3
replies
2.2k
views
Locating older version of Bioconductor packages
reproducibility
archive
source code
updated 8.5 years ago by
Dan Tenenbaum
★ 8.2k • written 8.5 years ago by
brucbruc
• 0
0
votes
0
replies
792
views
Which tools should we use to make research reproducible?
bioconductor
R
reproducibility
7.5 years ago
lwumd1400
• 0
7 results • Page
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Comment: Get genomic coordinates of CpGs sites (chromosomes, genomic position)
by
Yveto
• 0
Thank for your response. It is Illumina 450 K. I use this code ```{r } library(IlluminaHumanMethylation450kanno.ilmn12.hg19) annotat…
Answer: More regions in union when increasing DBA$config$mergeOverlap
by
Rory Stark
★ 5.2k
I think the documentation is out of sync with the code. Positive values represent gaps between intervals and negative values represent how …
Comment: log2FoldChange value is way too different when compared with counts(dds)
by
Michael Love
41k
But just to be clear, this is not the same as regressing out batch from the VST (approx log transformed): ``` limma::removeBatchEffect(cou…
Comment: log2FoldChange value is way too different when compared with counts(dds)
by
HAK
• 0
Thank you for the explanation, probably my brain just needed to accumulate enough info to understand what you are saying, but I finally got…
Answer: Getting Error in hclust(d, method = method): NA/NaN/Inf in foreign function call
by
ATpoint
★ 4.1k
Here the error probably means that you habe genes where expression scross all samples is the same. Rowscaling is value minus mean divided b…
Votes
Bioconductor 3.19 is Released!
Answer: DEseq2 coefficient
SPIA plotP giving error
Answer: Fold change calculation in Diffbind vs. DESEQ2?
C: How to establish a subset from TxDb.Hsapiens.UCSC.hg38.knownGene DB
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tangming2005
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